write_sequences: Write sequences to a file

In bioDS/beter: BEAST Templates in R

Write sequences to a file

Description

Write sequences to a file

Usage

write_sequences(seq, file = "", format = NULL, ...)

write_fasta(seq, file = "", nchar = 80)

write_nexus(seq, file = "", datatype = NULL, missing = NULL, gap = NULL)

Arguments

seq	a named vector of sequences
file	a character string naming a file
format	**optional** write sequences in this format, currently supported formats are 'fasta' and 'nexus'
...	**optional** parameters passed to the underlying function
nchar	**optional** a number of characters per line
datatype	**optional** the type of data
missing	**optional** symbol representing missing data
gap	**optional** symbol representing a gap in aligned sequence

Examples

seq1 = c("A" = "AAA", "B" = "BBB", "C" = "CCC")
fasta = tempfile(fileext = ".fasta")
write_fasta(seq1, fasta)

seq2 = read_fasta(fasta)
identical(seq1, seq2)

bioDS/beter documentation built on June 15, 2022, 7:58 a.m.